Yum, tasty mutations...

mutation t@sting

 documentation

Prediction

disease causing

 Model: simple_aae, prob: 0.997353619105933 (classification due to ClinVar, real probability is shown anyway)      (explain)
Summary
  • amino acid sequence changed
  • known disease mutation at this position (HGMD CM081197)
  • known disease mutation: rs3643 (pathogenic)
  • protein features (might be) affected
  • splice site changes
 hyperlink
analysed issue analysis result
name of alteration no title
alteration (phys. location) chr1:227172611A>GN/A show variant in all transcripts   IGV
HGNC symbol COQ8A
Ensembl transcript ID ENST00000458507
Genbank transcript ID N/A
UniProt peptide Q8NI60
alteration type single base exchange
alteration region CDS
DNA changes c.704A>G
cDNA.992A>G
g.87375A>G
AA changes Y235C Score: 194 explain score(s)
position(s) of altered AA
if AA alteration in CDS		 235
frameshift no
known variant Reference ID: rs119468008
Allele 'G' was neither found in ExAC nor 1000G.
known disease mutation: rs3643 (pathogenic for Coenzyme Q10 deficiency, primary, 4) dbSNP  NCBI variation viewer
known disease mutation at this position, please check HGMD for details (HGMD ID CM081197)

known disease mutation at this position, please check HGMD for details (HGMD ID CM081197)
known disease mutation at this position, please check HGMD for details (HGMD ID CM081197)
regulatory features PolII, Polymerase, RNA Polymerase II
H3K36me3, Histone, Histone 3 Lysine 36 Tri-Methylation
phyloP / phastCons
PhyloPPhastCons
(flanking)3.4771
0.3390.999
(flanking)0.8931
explain score(s) and/or inspect your position(s) in in UCSC Genome Browser
splice sites
effectgDNA positionscorewt detection sequence exon-intron border
Donor increased87369wt: 0.32 / mu: 0.97wt: AACGCGGGAATATGA
mu: AACGCGGGAATGTGA		 CGCG|ggaa
Donor marginally increased87368wt: 0.8098 / mu: 0.8299 (marginal change - not scored)wt: CAACGCGGGAATATG
mu: CAACGCGGGAATGTG		 ACGC|ggga
distance from splice site 32
Kozak consensus sequence altered? N/A
conservation
protein level for non-synonymous changes
speciesmatchgeneaaalignment
Human      235VALLDFGATREYDRSFTDLYIQII
mutated  not conserved    235VALLDFGATRECDRSFT
Ptroglodytes  all identical  ENSPTRG00000033741  514VA-LDFGATREYDRSFT
Mmulatta  all identical  ENSMMUG00000008636  514VALLDFGATREYDRSFT
Fcatus  no homologue    
Mmusculus  all identical  ENSMUSG00000026489  511VALLDFGATREYDRSFT
Ggallus  all conserved  ENSGALG00000009082  515VALLDFGATRGFDEKFT
Trubripes  all conserved  ENSTRUG00000014182  305VALLDFGATRGFDQSFTDVYIE
Drerio  all conserved  ENSDARG00000020123  483VALLDFGATRGFDESFT
Dmelanogaster  all identical  FBgn0052649  532LMLIDFGSTRFYRHEFI
Celegans  all identical  C35D10.4  613LVLLDFGASRAYG
Xtropicalis  no homologue    
protein features
start (aa)end (aa)featuredetails 
283284CONFLICTIQ -> VR (in Ref. 4; BAC11143).might get lost (downstream of altered splice site)
329518DOMAINProtein kinase.might get lost (downstream of altered splice site)
length of protein normal
AA sequence altered yes
position of stopcodon in wt / mu CDS 1107 / 1107
position (AA) of stopcodon in wt / mu AA sequence 369 / 369
position of stopcodon in wt / mu cDNA 1395 / 1395
poly(A) signal N/A
conservation
nucleotide level for all changes - no scoring up to now		 N/A
position of start ATG in wt / mu cDNA 289 / 289
chromosome 1
strand 1
last intron/exon boundary 1111
theoretical NMD boundary in CDS 772
length of CDS 1107
coding sequence (CDS) position 704
cDNA position
(for ins/del: last normal base / first normal base)		 992
gDNA position
(for ins/del: last normal base / first normal base)		 87375
chromosomal position
(for ins/del: last normal base / first normal base)		 227172611
original gDNA sequence snippet TTTTGGGGCAACGCGGGAATATGACAGATCCTTCACCGACC
altered gDNA sequence snippet TTTTGGGGCAACGCGGGAATGTGACAGATCCTTCACCGACC
original cDNA sequence snippet TTTTGGGGCAACGCGGGAATATGACAGATCCTTCACCGACC
altered cDNA sequence snippet TTTTGGGGCAACGCGGGAATGTGACAGATCCTTCACCGACC
wildtype AA sequence MLSIQDDAFI NPHLAKIFER VRQSADFMPL KQMMKTLNND LGPNWRDKLE YFEERPFAAA
SIGQVHLARM KGGREVAMKI QYPGVAQSIN SDVNNLMAVL NMSNMLPEGL FPEHLIDVLR
RELALECDYQ REAACARKFR DLLKGHPFFY VPEIVDELCS PHVLTTELVS GFPLDQAEGL
SQEIRNEICY NILVLCLREL FEFHFMQTDP NWSNFFYDPQ QHKVALLDFG ATREYDRSFT
DLYIQIIRAA ADRDRETVRA KSIEMKFLTG YEVKVMEDAH LDAILILGEA FASDEPFDFG
TQSTTEKIHN LIPVMLRHRL VPPPEETYSL HRKMGGSFLI CSKLKARFPC KAMFEEAYSN
YCKRQAQQ*
mutated AA sequence MLSIQDDAFI NPHLAKIFER VRQSADFMPL KQMMKTLNND LGPNWRDKLE YFEERPFAAA
SIGQVHLARM KGGREVAMKI QYPGVAQSIN SDVNNLMAVL NMSNMLPEGL FPEHLIDVLR
RELALECDYQ REAACARKFR DLLKGHPFFY VPEIVDELCS PHVLTTELVS GFPLDQAEGL
SQEIRNEICY NILVLCLREL FEFHFMQTDP NWSNFFYDPQ QHKVALLDFG ATRECDRSFT
DLYIQIIRAA ADRDRETVRA KSIEMKFLTG YEVKVMEDAH LDAILILGEA FASDEPFDFG
TQSTTEKIHN LIPVMLRHRL VPPPEETYSL HRKMGGSFLI CSKLKARFPC KAMFEEAYSN
YCKRQAQQ*
speed 0.99 s
All positions are in basepairs (bp) if not explicitly stated differently.
AA/aa: amino acid; CDS: coding sequence; mu: mutated; NMD: nonsense-mediated mRNA decay; nt: nucleotide; wt: wildtype; TGP: 1000 Genomes Project